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Actin Colocalizes with Pol II at TSS and Gene Bodies of Transcribed Genes (A) Heatmap of the ratio between the sample (histone H3K4met3, Pol II S5P, and actin with two antibodies, AC-74 and AC15) and input ChIP-seq signals across gene regions, standardized and segmented into 200 bins. Transcription start sites (TSS) and transcription end sites (TES) are indicated. Genes are sorted according to normalized read count (NRC) of RNA sequencing data from w 1118 fly ovaries (right panel). (B) Venn diagram showing overlap of actin (AC-74) and Pol II S5P peaks from ChIP-seq. (C) Average signal of read counts normalized to the input from À500 bp to +500 bp from the TSS of gene loci (n = 10,843). (D and E) (D) Binding profile of actin and Pol II on chorion genes at 66D locus of chromosome 3L. Antibodies used in ChIPseq are indicated on the left, and signal intensity as number of reads is shown in parentheses above each track. Results from two experiment replicates (rep) are shown. (E) ChIP-seq with the indicated antibodies with average signal of read counts normalized to input shown across the gene body of known eggshell-protein-encoding genes (Tootle et al., 2011).

Actin Colocalizes with Pol II at TSS and Gene Bodies of Transcribed Genes (A) Heatmap of the ratio between the sample (histone H3K4met3, Pol II S5P, and actin with two antibodies, AC-74 and AC15) and input ChIP-seq signals across gene regions, standardized and segmented into 200 bins. Transcription start sites (TSS) and transcription end sites (TES) are indicated. Genes are sorted according to normalized read count (NRC) of RNA sequencing data from w 1118 fly ovaries (right panel). (B) Venn diagram showing overlap of actin (AC-74) and Pol II S5P peaks from ChIP-seq. (C) Average signal of read counts normalized to the input from À500 bp to +500 bp from the TSS of gene loci (n = 10,843). (D and E) (D) Binding profile of actin and Pol II on chorion genes at 66D locus of chromosome 3L. Antibodies used in ChIPseq are indicated on the left, and signal intensity as number of reads is shown in parentheses above each track. Results from two experiment replicates (rep) are shown. (E) ChIP-seq with the indicated antibodies with average signal of read counts normalized to input shown across the gene body of known eggshell-protein-encoding genes (Tootle et al., 2011).

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Actin has been linked to processes spanning the whole gene expression cascade, from regulating specific transcription factors, such as myocardin-related transcription factor, to chromatin remodeling and RNA polymerase function. However, whether actin controls the transcription of only specific genes or has a global role in gene expression has remai...

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... obtain a genome-wide view of actin-chromatin interactions, further ChIP-seq analysis of the w 1118 fly strain revealed actin on the promoters of essentially all transcribed genes together with Pol II S5P (Figure 2A). Peak calling confirmed the substantial overlap between actin and Pol II S5P binding sites ( Figure 2B). ...
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... obtain a genome-wide view of actin-chromatin interactions, further ChIP-seq analysis of the w 1118 fly strain revealed actin on the promoters of essentially all transcribed genes together with Pol II S5P (Figure 2A). Peak calling confirmed the substantial overlap between actin and Pol II S5P binding sites ( Figure 2B). However, detailed analysis showed that actin binds promoters slightly before the TSS and Pol II S5P enrichment ( Figure 2C), indicating that actin could be involved in transcriptional initiation, perhaps via pre-initiation complex formation, as suggested before ( Hofmann et al., 2004). ...
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... calling confirmed the substantial overlap between actin and Pol II S5P binding sites ( Figure 2B). However, detailed analysis showed that actin binds promoters slightly before the TSS and Pol II S5P enrichment ( Figure 2C), indicating that actin could be involved in transcriptional initiation, perhaps via pre-initiation complex formation, as suggested before ( Hofmann et al., 2004). ...
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... to the Act5C gene (Figure 1), actin was also found, together with Pol II S5P, on the gene bodies of certain genes (Figure 2A, genes at the bottom have highest expression). These included, for example, the highly transcribed chorion genes ( Figure 2D) involved in eggshell formation. ...
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... to the Act5C gene (Figure 1), actin was also found, together with Pol II S5P, on the gene bodies of certain genes (Figure 2A, genes at the bottom have highest expression). These included, for example, the highly transcribed chorion genes ( Figure 2D) involved in eggshell formation. On these genes actin is enriched more toward the transcription end site than the TSS ( Figure 2E). ...
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... included, for example, the highly transcribed chorion genes ( Figure 2D) involved in eggshell formation. On these genes actin is enriched more toward the transcription end site than the TSS ( Figure 2E). Notably, both actin antibodies produced a very similar binding pattern on chromatin (Figures 2A, 2B, 2D, and 2E). ...
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... these genes actin is enriched more toward the transcription end site than the TSS ( Figure 2E). Notably, both actin antibodies produced a very similar binding pattern on chromatin (Figures 2A, 2B, 2D, and 2E). This genome- wide analysis shows that actin interacts with most transcribed genes in Drosophila ovaries and that depending on the expression level of the gene, actin can be found both on the promoters and gene bodies. ...
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... the binding pattern of actin reflects its dual roles in transcription, both during transcription initiation and elongation, or whether the recruitment to gene bodies represents a specific requirement for actin upon high transcriptional activity, awaits further studies. An obvious candidate for recruiting actin to the genes is Pol II, which based on our ChIP-seq studies co-occupies most actin-binding sites (Figure 2), although not with exactly the same pattern. Other candidates include the different chromatin remodeling complexes containing actin (Kapoor and Shen, 2013), as well as the elongation factor P-TEFb ( Qi et al., 2011). ...

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... In particular, actin has been linked to many processes that regulate gene expression [43][44][45][46]. Actin interacts with essentially all transcribed genes in Drosophila ovaries [47], copurifies with all three eukaryotic RNA polymerases [44,45,48], and regulates the activity of specific transcription factors [49]. In addition to gene expression, actin is linked to DNA replication [50], DNA damage response [51][52][53][54][55], and long-range chromatin motion [56][57][58]. ...
... Nuclear export depends on binding to exportin 6 [62][63][64]. According to several reports, the nuclear import of actin depends on importin 9 [47,62,65]; however, a recent study indicated that multiple importins can transport actin into the nucleus in Drosophila [66]. Interestingly, actin, which has no NLS, is imported into the nucleus in complex with cofilin [67], which contains NLS [68,69]. ...
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... One of the essential functions of nuclear actin is its role in transcription regulation. For optimal transcription, the levels of actin inside the nucleus have to be controlled, as manipulating actin levels impairs transcription both in vitro and in cells (Dopie et al., 2012;Hu et al., 2004;Philimonenko et al., 2004;Sokolova et al., 2018). Decreased nuclear actin levels in response to laminin-111 and consequent PI3 kinase pathway attenuation leading to increased Exp6 activity have also been shown to destabilize Pol II and Pol III interactions with nuclear substructures, causing lower RNA synthesis rates and quiescence in mouse epithelial cells (Fiore et al., 2017;Spencer et al., 2011). ...
... Decreased nuclear actin levels in response to laminin-111 and consequent PI3 kinase pathway attenuation leading to increased Exp6 activity have also been shown to destabilize Pol II and Pol III interactions with nuclear substructures, causing lower RNA synthesis rates and quiescence in mouse epithelial cells (Fiore et al., 2017;Spencer et al., 2011). In Drosophila ovaries, actin and Pol II co-occupy promoter regions of most transcribed genes, as well as the gene bodies of highly transcribed genes (Sokolova et al., 2018). It is becoming clear that actin has functions throughout the transcription process. ...
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Actin is a highly conserved protein in mammals. The actin dynamics is regulated by actin-binding proteins and actin-related proteins. Nuclear actin and these regulatory proteins participate in multiple nuclear processes, including chromosome architecture organization, chromatin remodeling, transcription machinery regulation, and DNA repair. It is well known that the dysfunctions of these processes contribute to the development of cancer. Moreover, emerging evidence has shown that the deregulated actin dynamics is also related to cancer. This chapter discusses how the deregulation of nuclear actin dynamics contributes to tumorigenesis via such various nuclear events.KeywordsNuclear actinChromosome architectureChromatin remodelingBAF complexINO80 complexTranscription machineryRNA polymeraseDNA repairGene expressionCancer
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